https://github.com/mrc-ide/global-lmic-reports-orderly

COVID-19 forecast reports for LMICs
https://github.com/mrc-ide/global-lmic-reports-orderly

Last synced: about 2 months ago
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COVID-19 forecast reports for LMICs

• Host: GitHub
• URL: https://github.com/mrc-ide/global-lmic-reports-orderly
• Owner: mrc-ide
• Created: 2020-04-11T15:43:16.000Z (over 4 years ago)
• Default Branch: master
• Last Pushed: 2024-03-23T14:43:15.000Z (9 months ago)
• Last Synced: 2024-09-06T16:29:51.868Z (4 months ago)
• Language: R
• Size: 136 MB
• Stars: 8
• Watchers: 4
• Forks: 5
• Open Issues: 1
• Metadata Files:
  • Readme: README.md

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README

        
# orderly

This is an [`orderly`](https://github.com/vimc/orderly) project.  The directories are:

* `src`: create new reports here

* `archive`: versioned results of running your report

* `vignettes`: `.Rmd` files for running the fitting process 

* `R`: Functions used in the vignettes

* `global`: Resources used for setting up the GitHub page, accessible to orderly tasks

* `scripts`: `.sh` scripts for updating the output GitHub repositories

The following directories will be generated during regular usage:

* `fits`: `.pdf` files for checking model fit quality.

* `draft`: draft versions of the orderly tasks.

* `gh-esft`: copy of the output repository [global_lmic_projections_esft](https://github.com/mrc-ide/global_lmic_projections_esft)

* `gh-fits`: copy of the output repository [nimue_global_fits](https://github.com/mrc-ide/nimue_global_fits)

* `gh-pages`: copy of the output repository [global-lmic-reports](https://github.com/mrc-ide/global-lmic-reports)

# Instructions for DIDE server

On overview of the submission of model fits to the DIDE cluster is in the 

`dide_run.Rmd` vignette in the vignettes folder. All instructions should be self

contained in that Rmd document, and it is advised to follow through that document. 

To see an overview, click [here](https://htmlpreview.github.io/?https://github.com/mrc-ide/global-lmic-reports-orderly/blob/master/vignettes/dide_run.html). 

For any troubleshooting help, please see the `FAQ.Rmd` vignette in the vignettes folder 

(also available to viewe [here](https://htmlpreview.github.io/?https://github.com/mrc-ide/global-lmic-reports-orderly/blob/master/vignettes/faq.html))